ASTRAL-III: Increased Scalability and Impacts of Contracting Low Support Branches. - Chao Zhang 055; Erfan Sayyari; Siavash Mirarab (RECOMB-CG, 2017)

ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees. - Chao Zhang 055; Maryam Rabiee; Erfan Sayyari; Siavash Mirarab (BMC Bioinform., 2018)

ASTRAL-MP: scaling ASTRAL to very large datasets using randomization and parallelization. - John Yin; Chao Zhang 055; Siavash Mirarab (Bioinform., 2019)

ASTRAL-Pro 2: ultrafast species tree reconstruction from multi-copy gene family trees. - Chao Zhang 055; Siavash Mirarab (Bioinform., 2022)

Phylogenomic branch length estimation using quartets. - Yasamin Tabatabaee; Chao Zhang 055; Tandy J. Warnow; Siavash Mirarab (Bioinform., 2023)